FastQCFastQC Report
Fri 19 Dec 2014
cdc9deg_rad27d_rnh201_ACAGTG_L001_R2_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
Filenamecdc9deg_rad27d_rnh201_ACAGTG_L001_R2_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences28725865
Sequences flagged as poor quality0
Sequence length51
%GC40

[OK]Per base sequence quality

Per base quality graph

[OK]Per tile sequence quality

Per base quality graph

[OK]Per sequence quality scores

Per Sequence quality graph

[FAIL]Per base sequence content

Per base sequence content

[OK]Per sequence GC content

Per sequence GC content graph

[OK]Per base N content

N content graph

[OK]Sequence Length Distribution

Sequence length distribution

[FAIL]Sequence Duplication Levels

Duplication level graph

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG1437200.500315656290942Illumina Single End PCR Primer 1 (100% over 51bp)
ACACTCTTTCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTC464090.16155823332038913Illumina Single End PCR Primer 1 (100% over 40bp)
ACACTCTTTCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCG428670.14922788225872397Illumina Single End PCR Primer 1 (100% over 41bp)

[WARN]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GGTCGCC167800.040.26187544
GCACACG284600.038.73927718
GTCGCCG174950.038.69357345
GTGGTCG182250.037.09239242
GAGCACA385200.036.90994316
AGCACAC334850.036.68322417
AGAGCAC393550.036.4648915
ACACTCT239850.035.0784871
CACACGT190150.034.96644619
TGGTCGC194700.034.3387143
ACACGAG124150.034.01733820
CACACGA129600.033.87213519
CTCGGTG212000.032.6836938
GGTGGTC209300.032.4616541
CACTCTT265850.032.098222
CACGTAG101250.031.46723621
CGGTGGT218000.031.34170740
CACGAGA135850.030.79002821
AAGAGCA532900.030.6203814
TCTCGGT229850.030.17648737
Produced by FastQC (version 0.11.2)